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Source: maffilter
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Andreas Tille <tille@debian.org>,
Julien Dutheil <julien.dutheil@univ-montp2.fr>
Section: science
Priority: optional
Build-Depends: debhelper (>= 9),
cmake,
texinfo,
libbpp-phyl-omics-dev (>= 2.2.0),
libboost-iostreams-dev (>= 1.54.0),
zlib1g-dev,
libbz2-dev
Standards-Version: 3.9.8
Vcs-Browser: https://anonscm.debian.org/cgit/debian-med/maffilter.git
Vcs-Git: https://anonscm.debian.org/git/debian-med/maffilter.git
Homepage: http://biopp.univ-montp2.fr/forge/maffilter
Package: maffilter
Architecture: any
Depends: ${shlibs:Depends},
${misc:Depends}
Suggests: maffilter-examples
Description: process genome alignment in the Multiple Alignment Format
MafFilter applies a series of "filters" to a MAF file, in order to
clean it, extract data and computer statistics while keeping track of
the associated meta-data such as genome coordinates and quality scores.
.
* It can process the alignment to remove low-quality / ambiguous /
masked regions.
* It can export data into a single or multiple alignment file in
format such as Fasta or Clustal.
* It can read annotation data in GFF or GTF format, and extract the
corresponding alignment.
* It can perform sliding windows calculations.
* It can reconstruct phylogeny/genealogy along the genome alignment.
* It can compute population genetics statistics, such as site
frequency spectrum, number of fixed/polymorphic sites, etc.
Package: maffilter-examples
Architecture: all
Depends: ${misc:Depends}
Enhances: maffilter
Description: process genome alignment in the Multiple Alignment Format (example data)
MafFilter applies a series of "filters" to a MAF file, in order to
clean it, extract data and computer statistics while keeping track of
the associated meta-data such as genome coordinates and quality scores.
.
* It can process the alignment to remove low-quality / ambiguous /
masked regions.
* It can export data into a single or multiple alignment file in
format such as Fasta or Clustal.
* It can read annotation data in GFF or GTF format, and extract the
corresponding alignment.
* It can perform sliding windows calculations.
* It can reconstruct phylogeny/genealogy along the genome alignment.
* It can compute population genetics statistics, such as site
frequency spectrum, number of fixed/polymorphic sites, etc.
.
This package provides example data for maffilter.
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